layout_constrained_stress3D: constrained stress layout in 3D

Description

force-directed graph layout based on stress majorization with variable constrained in 3D

Usage

layout_with_constrained_stress3D(
  g,
  coord,
  fixdim = "x",
  weights = NA,
  iter = 500,
  tol = 1e-04,
  mds = TRUE,
  bbox = 30
)

Value

matrix of xyz coordinates

Arguments

g: igraph object
coord: numeric vector. fixed coordinates for dimension specified in fixdim.
fixdim: string. which dimension should be fixed. Either "x", "y" or "z".
weights: possibly a numeric vector with edge weights. If this is NULL and the graph has a weight edge attribute, then the attribute is used. If this is NA then no weights are used (even if the graph has a weight attribute). By default, weights are ignored. See details for more.
iter: number of iterations during stress optimization
tol: stopping criterion for stress optimization
mds: should an MDS layout be used as initial layout (default: TRUE)
bbox: constrain dimension of output. Only relevant to determine the placement of disconnected graphs

Details

Be careful when using weights. In most cases, the inverse of the edge weights should be used to ensure that the endpoints of an edges with higher weights are closer together (weights=1/E(g)$weight).

This function does not come with direct support for igraph or ggraph.

References